bfast-0.7.0a-alt1_22.i586.rpm


Advertisement

Description

bfast - Blat-like Fast Accurate Search Tool

Property Value
Distribution ALT Linux Sisyphus
Repository Autoimports i586
Package filename bfast-0.7.0a-alt1_22.i586.rpm
Package name bfast
Package version 0.7.0a
Package release alt1_22
Package architecture i586
Package type rpm
Category Other
Homepage -
License -
Maintainer -
Download size 2.65 MB
Installed size 2.65 MB
BFAST facilitates the fast and accurate mapping of short reads to
reference sequences.  Some advantages of BFAST include:
Speed: enables billions of short reads to be mapped quickly.
Accuracy: A priori probabilities for mapping reads with defined set of variants.
An easy way to measurably tune accuracy at the expense of speed.
Specifically, BFAST was designed to facilitate whole-genome
resequencing, where mapping billions of short reads with variants is
of utmost importance.
BFAST supports both Illumina and ABI SOLiD data, as well as any other
Next-Generation Sequencing Technology (454, Helicos), with particular
emphasis on sensitivity towards errors, SNPs and especially
indels. Other algorithms take short-cuts by ignoring errors, certain
types of variants (indels), and even require further alignment, all to
be the "fastest" (but still not complete). BFAST is able to be tuned
to find variants regardless of the error-rate, polymorphism rate, or
other factors.

Alternatives

Package Version Architecture Repository
bfast-0.7.0a-alt1_22.x86_64.rpm 0.7.0a x86_64 Autoimports
bfast - - -

Requires

Name Value
/lib/ld-linux.so.2 -
/usr/bin/perl -
libbz2.so.1 -
libc.so.6(GLIBC_2.0) -
libc.so.6(GLIBC_2.1) -
libc.so.6(GLIBC_2.3) -
libc.so.6(GLIBC_2.3.4) -
libc.so.6(GLIBC_2.4) -
libc.so.6(GLIBC_2.7) -
libm.so.6(GLIBC_2.0) -
libpthread.so.0(GLIBC_2.0) -
libpthread.so.0(GLIBC_2.1) -
libz.so.1 -
perl(Cwd.pm) -
perl(Data/Dumper.pm) -
perl(File/Path.pm) -
perl(Getopt/Long.pm) -
perl(Getopt/Std.pm) -
perl(Pod/Usage.pm) -
perl(XML/Simple.pm) -
perl(constant.pm) -
rpmlib(PayloadIsLzma) -
rpmlib(SetVersions) -
rtld(GNU_HASH) -

Provides

Name Value
bfast = 0.7.0a-alt1_22

Download

Type URL
Mirror ftp.altlinux.org
Binary Package bfast-0.7.0a-alt1_22.i586.rpm
Source Package bfast-0.7.0a-alt1_22.src.rpm

Install Howto

  1. Add the following line to /etc/apt/sources.list:
    
    rpm [Sisyphus] http://ftp.altlinux.org/pub/distributions/ALTLinux/autoimports/Sisyphus i586 autoimports
    rpm [Sisyphus] http://ftp.altlinux.org/pub/distributions/ALTLinux/autoimports/Sisyphus noarch autoimports
    
  2. Update the package index:
    # sudo apt-get update
  3. Install bfast rpm package:
    # sudo apt-get install bfast

Files

Path
/usr/bin/balignmentscoredistribution
/usr/bin/balignsim
/usr/bin/bevalsim
/usr/bin/bfast
/usr/bin/bfast.resubmit.pl
/usr/bin/bfast.submit.pl
/usr/bin/bgeneratereads
/usr/bin/bindexdist
/usr/bin/bindexhist
/usr/bin/bmfmerge
/usr/bin/brepeat
/usr/bin/btestindexes
/usr/bin/ill2fastq.pl
/usr/bin/solid2fastq
/usr/share/doc/bfast-0.7.0a/AUTHORS
/usr/share/doc/bfast-0.7.0a/ChangeLog
/usr/share/doc/bfast-0.7.0a/LICENSE
/usr/share/doc/bfast-0.7.0a/NEWS
/usr/share/doc/bfast-0.7.0a/README
/usr/share/doc/bfast-0.7.0a/bfast-book.pdf

See Also

Package Description
bib2html-1.2.1-alt1_23.i586.rpm Converting bibTeX file to HTML
bibtex2html-1.99-alt1_4.i586.rpm Collection of tools for translating from BibTeX to HTML
bibus-1.5.2-alt1_9.i586.rpm Bibliographic and reference management software
bibutils-6.7-alt1_3.i586.rpm Bibliography conversion tools
bibutils-devel-6.7-alt1_3.i586.rpm Development files for bibutils
bibutils-libs-6.7-alt1_3.i586.rpm Bibutils library
bicon-0.5-alt1_9.i586.rpm Bidirectional Console
bicon-devel-0.5-alt1_9.i586.rpm Development Libraries for BiCon
bidiv-1.5-alt1_25.i586.rpm Display logical Hebrew on unidirectional terminals
bifcl-1.1-alt1_2.i586.rpm A built-in-function (BIF) compiler/generator
bind-to-tinydns-0.4.3-alt1_25.20140818gitdf0ddc3.i586.rpm Convert DNS zone files in BIND format to tinydns format
bino-1.6.7-alt1_2.i586.rpm Video Player with 3D and Multi-Display Video Support
bio2jack-0.9-alt1_22.i586.rpm A library for porting blocked io(OSS/ALSA) applications to jack
bio2jack-devel-0.9-alt1_22.i586.rpm Development files for bio2jack
bios_extract-0-alt1_0.24.20180628giteffb120.i586.rpm Tools to extract the different submodules of common legacy bioses
Advertisement
Advertisement